CN108351917B - 用于高精度识别变体的系统和方法 - Google Patents
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- CN108351917B CN108351917B CN201680054282.0A CN201680054282A CN108351917B CN 108351917 B CN108351917 B CN 108351917B CN 201680054282 A CN201680054282 A CN 201680054282A CN 108351917 B CN108351917 B CN 108351917B
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- G—PHYSICS
- G16—INFORMATION AND COMMUNICATION TECHNOLOGY [ICT] SPECIALLY ADAPTED FOR SPECIFIC APPLICATION FIELDS
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- G16B20/00—ICT specially adapted for functional genomics or proteomics, e.g. genotype-phenotype associations
- G16B20/20—Allele or variant detection, e.g. single nucleotide polymorphism [SNP] detection
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- G16B20/00—ICT specially adapted for functional genomics or proteomics, e.g. genotype-phenotype associations
- G16B20/40—Population genetics; Linkage disequilibrium
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- G16—INFORMATION AND COMMUNICATION TECHNOLOGY [ICT] SPECIALLY ADAPTED FOR SPECIFIC APPLICATION FIELDS
- G16B—BIOINFORMATICS, i.e. INFORMATION AND COMMUNICATION TECHNOLOGY [ICT] SPECIALLY ADAPTED FOR GENETIC OR PROTEIN-RELATED DATA PROCESSING IN COMPUTATIONAL MOLECULAR BIOLOGY
- G16B30/00—ICT specially adapted for sequence analysis involving nucleotides or amino acids
- G16B30/10—Sequence alignment; Homology search
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- G—PHYSICS
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- G16B35/00—ICT specially adapted for in silico combinatorial libraries of nucleic acids, proteins or peptides
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- G16B45/00—ICT specially adapted for bioinformatics-related data visualisation, e.g. displaying of maps or networks
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- G—PHYSICS
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- G16B50/00—ICT programming tools or database systems specially adapted for bioinformatics
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- G—PHYSICS
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- G16C—COMPUTATIONAL CHEMISTRY; CHEMOINFORMATICS; COMPUTATIONAL MATERIALS SCIENCE
- G16C20/00—Chemoinformatics, i.e. ICT specially adapted for the handling of physicochemical or structural data of chemical particles, elements, compounds or mixtures
- G16C20/60—In silico combinatorial chemistry
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Applications Claiming Priority (3)
Application Number | Priority Date | Filing Date | Title |
---|---|---|---|
US201562209858P | 2015-08-25 | 2015-08-25 | |
US62/209,858 | 2015-08-25 | ||
PCT/US2016/048768 WO2017035392A1 (en) | 2015-08-25 | 2016-08-25 | Systems and methods for high-accuracy variant calling |
Publications (2)
Publication Number | Publication Date |
---|---|
CN108351917A CN108351917A (zh) | 2018-07-31 |
CN108351917B true CN108351917B (zh) | 2022-03-08 |
Family
ID=58101056
Family Applications (1)
Application Number | Title | Priority Date | Filing Date |
---|---|---|---|
CN201680054282.0A Active CN108351917B (zh) | 2015-08-25 | 2016-08-25 | 用于高精度识别变体的系统和方法 |
Country Status (13)
Country | Link |
---|---|
US (2) | US11393557B2 (ja) |
EP (1) | EP3341877B1 (ja) |
JP (2) | JP6533011B2 (ja) |
KR (2) | KR102211461B1 (ja) |
CN (1) | CN108351917B (ja) |
AU (2) | AU2016311444B2 (ja) |
BR (1) | BR112018003631A2 (ja) |
CA (1) | CA2996702C (ja) |
HK (1) | HK1257052A1 (ja) |
IL (2) | IL257724B (ja) |
MX (1) | MX2018002293A (ja) |
RU (1) | RU2018106934A (ja) |
WO (1) | WO2017035392A1 (ja) |
Families Citing this family (21)
Publication number | Priority date | Publication date | Assignee | Title |
---|---|---|---|---|
EP3280738A4 (en) | 2015-04-08 | 2019-01-02 | Nantomics, LLC | Cancer neoepitopes |
MX2018002293A (es) | 2015-08-25 | 2018-09-05 | Nantomics Llc | Sistemas y métodos para las llamadas variantes de alta precisión. |
KR20180087246A (ko) | 2015-10-12 | 2018-08-01 | 난토믹스, 엘엘씨 | 네오에피토프의 반복적 발견 및 이에 대한 적응성 면역치료 및 방법 |
KR20180087244A (ko) | 2015-10-12 | 2018-08-01 | 난토믹스, 엘엘씨 | 체크포인트 억제제에 대한 감도를 예측하는 msi 및 네오에피토프를 발견하기 위한 위한 시스템, 조성물 및 방법 |
AU2017217877A1 (en) | 2016-02-12 | 2018-08-16 | Nant Holdings Ip, Llc | High-throughput identification of patient-specific neoepitopes as therapeutic targets for cancer immunotherapies |
KR20180117227A (ko) | 2016-03-24 | 2018-10-26 | 난트셀, 인크. | 네오에피토프 제시를 위한 시퀀스들 및 시퀀스 배열들 |
KR20210010678A (ko) | 2016-06-30 | 2021-01-27 | 난트 홀딩스 아이피, 엘엘씨 | 난트 암 백신 |
US10319465B2 (en) * | 2016-11-16 | 2019-06-11 | Seven Bridges Genomics Inc. | Systems and methods for aligning sequences to graph references |
AU2017362730B2 (en) | 2016-11-21 | 2021-04-08 | Nant Holdings Ip, Llc | Fractal combination therapy |
CN110214275B (zh) | 2016-12-01 | 2022-12-06 | 南托米克斯有限责任公司 | 肿瘤抗原性加工和呈递 |
CN116983395A (zh) | 2017-04-24 | 2023-11-03 | 河谷细胞有限公司 | 靶向性新表位载体及其方法 |
EP3933408A1 (en) | 2017-05-30 | 2022-01-05 | Nant Holdings IP LLC | Circulating tumor cell enrichment using neoepitopes |
CN111213210A (zh) * | 2017-09-06 | 2020-05-29 | 河谷控股Ip有限责任公司 | Hla组织匹配及用于其的方法 |
US11823773B2 (en) | 2018-04-13 | 2023-11-21 | Nant Holdings Ip, Llc | Nant cancer vaccine strategies |
TWI787500B (zh) | 2018-04-23 | 2022-12-21 | 美商南特細胞公司 | 新抗原表位疫苗及免疫刺激組合物及方法 |
US11564980B2 (en) | 2018-04-23 | 2023-01-31 | Nantcell, Inc. | Tumor treatment method with an individualized peptide vaccine |
US20220108768A1 (en) * | 2019-03-08 | 2022-04-07 | Nantomics, Llc | System and method for variant calling |
CN112885406B (zh) * | 2020-04-16 | 2023-01-31 | 深圳裕策生物科技有限公司 | 检测hla杂合性缺失的方法及系统 |
CN112289376B (zh) * | 2020-10-26 | 2021-07-06 | 北京吉因加医学检验实验室有限公司 | 一种检测体细胞突变的方法及装置 |
CN114496077B (zh) * | 2022-04-15 | 2022-06-21 | 北京贝瑞和康生物技术有限公司 | 用于检测单核苷酸变异和插入缺失的方法、设备和介质 |
WO2024106826A1 (ko) * | 2022-11-16 | 2024-05-23 | 주식회사 세니젠 | 기준 서열 데이터와 타겟 및 비-타겟종의 교차검증을 활용한, PCR을 위한 K-mer 유전자 데이터 프로세싱 방법 및 그 장치 |
Citations (2)
Publication number | Priority date | Publication date | Assignee | Title |
---|---|---|---|---|
CN102460155A (zh) * | 2009-04-29 | 2012-05-16 | 考利达基因组股份有限公司 | 用于关于参考多核苷酸序列标注样本多核苷酸序列中的变异的方法和系统 |
CN103699819A (zh) * | 2013-12-10 | 2014-04-02 | 深圳先进技术研究院 | 基于多步双向De Bruijn图的变长kmer查询的顶点扩展方法 |
Family Cites Families (17)
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US20100261189A1 (en) * | 2008-10-03 | 2010-10-14 | Roche Molecular Systems, Inc. | System and method for detection of HLA Variants |
US20130267429A1 (en) * | 2009-12-21 | 2013-10-10 | Lawrence Livermore National Security, Llc | Biological sample target classification, detection and selection methods, and related arrays and oligonucleotide probes |
WO2011143231A2 (en) | 2010-05-10 | 2011-11-17 | The Broad Institute | High throughput paired-end sequencing of large-insert clone libraries |
CA2885058A1 (en) * | 2012-10-08 | 2014-04-17 | Spiral Genetics Inc. | Methods and systems for identifying, from read symbol sequences, variations with respect to a reference symbol sequence |
US9181583B2 (en) | 2012-10-23 | 2015-11-10 | Illumina, Inc. | HLA typing using selective amplification and sequencing |
EP3915369A1 (en) | 2012-12-13 | 2021-12-01 | CytRx Corporation | Anthracycline formulations |
WO2014116729A2 (en) | 2013-01-22 | 2014-07-31 | The Board Of Trustees Of The Leland Stanford Junior University | Haplotying of hla loci with ultra-deep shotgun sequencing |
WO2014197569A1 (en) | 2013-06-05 | 2014-12-11 | Cytrx Corporation | Cytotoxic agents for the treatment of cancer |
JP2015035212A (ja) * | 2013-07-29 | 2015-02-19 | アジレント・テクノロジーズ・インクAgilent Technologies, Inc. | ターゲットシークエンシングパネルから変異を見つける方法 |
KR102386134B1 (ko) | 2013-10-15 | 2022-04-12 | 리제너론 파마슈티칼스 인코포레이티드 | 고분별능 대립유전자 동정 |
NZ721908A (en) | 2013-12-20 | 2022-12-23 | Massachusetts Gen Hospital | Combination therapy with neoantigen vaccine |
EP3280738A4 (en) | 2015-04-08 | 2019-01-02 | Nantomics, LLC | Cancer neoepitopes |
MX2018002293A (es) | 2015-08-25 | 2018-09-05 | Nantomics Llc | Sistemas y métodos para las llamadas variantes de alta precisión. |
JP2019511903A (ja) | 2016-02-19 | 2019-05-09 | ナント ホールディングス アイピー エルエルシーNant Holdings IP, LLC | 免疫原性調節の方法 |
KR20180118198A (ko) | 2016-03-18 | 2018-10-30 | 난트셀, 인크. | 수지상 세포 감염을 위한 멀티모달 벡터(multimodal vector for dendritic cell infection) |
KR20210010678A (ko) | 2016-06-30 | 2021-01-27 | 난트 홀딩스 아이피, 엘엘씨 | 난트 암 백신 |
CN111225673A (zh) | 2017-09-06 | 2020-06-02 | 河谷细胞有限公司 | 亚德阿霉素组合治疗及方法 |
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2016
- 2016-08-25 MX MX2018002293A patent/MX2018002293A/es unknown
- 2016-08-25 EP EP16840152.9A patent/EP3341877B1/en active Active
- 2016-08-25 AU AU2016311444A patent/AU2016311444B2/en active Active
- 2016-08-25 WO PCT/US2016/048768 patent/WO2017035392A1/en active Application Filing
- 2016-08-25 US US15/755,095 patent/US11393557B2/en active Active
- 2016-08-25 BR BR112018003631A patent/BR112018003631A2/pt not_active IP Right Cessation
- 2016-08-25 CA CA2996702A patent/CA2996702C/en active Active
- 2016-08-25 RU RU2018106934A patent/RU2018106934A/ru not_active Application Discontinuation
- 2016-08-25 CN CN201680054282.0A patent/CN108351917B/zh active Active
- 2016-08-25 KR KR1020197020554A patent/KR102211461B1/ko active IP Right Grant
- 2016-08-25 JP JP2018510056A patent/JP6533011B2/ja active Active
- 2016-08-25 KR KR1020187008056A patent/KR102011440B1/ko active IP Right Grant
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2018
- 2018-02-25 IL IL257724A patent/IL257724B/en active IP Right Grant
- 2018-11-19 IL IL263115A patent/IL263115B/en active IP Right Grant
- 2018-12-18 HK HK18116187.9A patent/HK1257052A1/zh unknown
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2019
- 2019-03-18 AU AU2019201869A patent/AU2019201869A1/en not_active Abandoned
- 2019-05-22 JP JP2019095951A patent/JP6883180B2/ja active Active
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2022
- 2022-06-16 US US17/842,519 patent/US20220319640A1/en active Pending
Patent Citations (2)
Publication number | Priority date | Publication date | Assignee | Title |
---|---|---|---|---|
CN102460155A (zh) * | 2009-04-29 | 2012-05-16 | 考利达基因组股份有限公司 | 用于关于参考多核苷酸序列标注样本多核苷酸序列中的变异的方法和系统 |
CN103699819A (zh) * | 2013-12-10 | 2014-04-02 | 深圳先进技术研究院 | 基于多步双向De Bruijn图的变长kmer查询的顶点扩展方法 |
Non-Patent Citations (3)
Title |
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De novo assembly and genotyping of variants using colored de Bruijn graphs;Zamin Iqbal et al.;《Nat Genet. Author manuscript》;20120801;第3-4,7,12-13页 * |
Review of General Algorithmic Features for Genome Assemblers for Next Generation Sequencers;Bilal Wajid et al.;《GENOMICS PROTEOMICS & BIOINFORMATICS》;20120430;第58-73页 * |
整合多层次数据多方位解析和注释人类转录组;陈庚;《中国博士学位论文全文数据库 基础科学辑》;20141215;第2014年卷(第12期);第A006-6页 * |
Also Published As
Publication number | Publication date |
---|---|
JP6883180B2 (ja) | 2021-06-09 |
AU2019201869A1 (en) | 2019-04-11 |
IL263115B (en) | 2020-06-30 |
KR102011440B1 (ko) | 2019-08-16 |
KR102211461B1 (ko) | 2021-02-03 |
KR20180058718A (ko) | 2018-06-01 |
JP2019169177A (ja) | 2019-10-03 |
US20220319640A1 (en) | 2022-10-06 |
JP6533011B2 (ja) | 2019-06-19 |
CA2996702A1 (en) | 2017-03-02 |
EP3341877A4 (en) | 2018-10-03 |
BR112018003631A2 (pt) | 2018-09-25 |
IL263115A (en) | 2018-12-31 |
CN108351917A (zh) | 2018-07-31 |
HK1257052A1 (zh) | 2019-10-11 |
EP3341877A1 (en) | 2018-07-04 |
JP2018533111A (ja) | 2018-11-08 |
CA2996702C (en) | 2020-07-14 |
EP3341877B1 (en) | 2023-05-10 |
US20180237949A1 (en) | 2018-08-23 |
MX2018002293A (es) | 2018-09-05 |
AU2016311444B2 (en) | 2019-02-07 |
AU2016311444A1 (en) | 2018-03-15 |
RU2018106934A (ru) | 2019-09-26 |
US11393557B2 (en) | 2022-07-19 |
WO2017035392A1 (en) | 2017-03-02 |
RU2018106934A3 (ja) | 2019-09-26 |
IL257724B (en) | 2018-11-29 |
KR20190090022A (ko) | 2019-07-31 |
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